{ "dbId" : 10912198, "stableId" : "R-DME-927802", "displayName" : "Nonsense-Mediated Decay (NMD)", "nodes" : [ { "id" : 100737, "reactomeId" : 10858368, "displayName" : "SMG1:UPF1:EJC:Translated mRNP", "schemaClass" : "Complex", "renderableClass" : "Complex", "position" : { "x" : 373, "y" : 331 }, "minX" : 243, "maxX" : 509, "minY" : 311, "maxY" : 405, "prop" : { "x" : 243, "y" : 317, "width" : 260, "height" : 29 }, "textPosition" : { "x" : 266, "y" : 325 }, "bgColor" : { "r" : 204, "g" : 255, "b" : 255 }, "interactorsSummary" : { "type" : "TR", "shape" : { "c" : { "x" : 503, "y" : 317 }, "r" : 6, "type" : "CIRCLE", "empty" : true, "centre" : { "x" : 503, "y" : 317 } } }, "connectors" : [ { "edgeId" : 100736, "type" : "INPUT", "segments" : [ { "from" : { "x" : 356, "y" : 349 }, "to" : { "x" : 323, "y" : 374 } } ], "stoichiometry" : { "value" : 1 } }, { "edgeId" : 100736, "type" : "CATALYST", "segments" : [ { "from" : { "x" : 369, "y" : 349 }, "to" : { "x" : 358, "y" : 397 } } ], "stoichiometry" : { "value" : 1 }, "endShape" : { "c" : { "x" : 358, "y" : 401 }, "r" : 4, "type" : "CIRCLE", "empty" : true, "centre" : { "x" : 358, "y" : 401 } } } ] }, { "id" : 100739, "reactomeId" : 10858370, "displayName" : "SMG1:Phosphorylated UPF1:EJC:Translated mRNP", "schemaClass" : "Complex", "renderableClass" : "Complex", "position" : { "x" : 450, "y" : 515 }, "minX" : 283, "maxX" : 623, "minY" : 449, "maxY" : 530, "prop" : { "x" : 283, "y" : 501, "width" : 334, "height" : 29 }, "textPosition" : { "x" : 292, "y" : 509 }, "bgColor" : { "r" : 204, "g" : 255, "b" : 255 }, "interactorsSummary" : { "type" : "TR", "shape" : { "c" : { "x" : 617, "y" : 501 }, "r" : 6, "type" : "CIRCLE", "empty" : true, "centre" : { "x" : 617, "y" : 501 } } }, "connectors" : [ { "edgeId" : 100736, "type" : "OUTPUT", "segments" : [ { "from" : { "x" : 422, "y" : 498 }, "to" : { "x" : 325, "y" : 449 } } ], "stoichiometry" : { "value" : 1 }, "endShape" : { "a" : { "x" : 414, "y" : 498 }, "b" : { "x" : 422, "y" : 498 }, "c" : { "x" : 418, "y" : 491 }, "type" : "ARROW", "centre" : { "x" : 418, "y" : 491 } } } ] }, { "id" : 100738, "reactomeId" : 113592, "displayName" : "ATP", "schemaClass" : "SimpleEntity", "renderableClass" : "Chemical", "position" : { "x" : 189, "y" : 374 }, "minX" : 170, "maxX" : 323, "minY" : 359, "maxY" : 389, "prop" : { "x" : 170, "y" : 360, "width" : 39, "height" : 29 }, "textPosition" : { "x" : 174, "y" : 364 }, "interactorsSummary" : { "type" : "TR", "shape" : { "c" : { "x" : 204, "y" : 365 }, "r" : 6, "type" : "CIRCLE", "empty" : true, "centre" : { "x" : 204, "y" : 365 } } }, "connectors" : [ { "edgeId" : 100736, "type" : "INPUT", "segments" : [ { "from" : { "x" : 212, "y" : 374 }, "to" : { "x" : 323, "y" : 374 } } ], "stoichiometry" : { "value" : 4, "shape" : { "a" : { "x" : 261, "y" : 368 }, "b" : { "x" : 273, "y" : 380 }, "type" : "BOX", "empty" : true, "centre" : { "x" : 267, "y" : 374 } } } } ] }, { "id" : 100740, "reactomeId" : 29370, "displayName" : "ADP", "schemaClass" : "SimpleEntity", "renderableClass" : "Chemical", "position" : { "x" : 198, "y" : 474 }, "minX" : 178, "maxX" : 325, "minY" : 449, "maxY" : 489, "prop" : { "x" : 178, "y" : 460, "width" : 40, "height" : 29 }, "textPosition" : { "x" : 181, "y" : 464 }, "interactorsSummary" : { "type" : "TR", "shape" : { "c" : { "x" : 213, "y" : 465 }, "r" : 6, "type" : "CIRCLE", "empty" : true, "centre" : { "x" : 213, "y" : 465 } } }, "connectors" : [ { "edgeId" : 100736, "type" : "OUTPUT", "segments" : [ { "from" : { "x" : 221, "y" : 470 }, "to" : { "x" : 325, "y" : 449 } } ], "stoichiometry" : { "value" : 4, "shape" : { "a" : { "x" : 267, "y" : 453 }, "b" : { "x" : 279, "y" : 465 }, "type" : "BOX", "empty" : true, "centre" : { "x" : 273, "y" : 459 } } }, "endShape" : { "a" : { "x" : 227, "y" : 465 }, "b" : { "x" : 221, "y" : 470 }, "c" : { "x" : 229, "y" : 473 }, "type" : "ARROW", "centre" : { "x" : 229, "y" : 473 } } } ] }, { "id" : 100743, "reactomeId" : 10858334, "displayName" : "mRNA Cleaved by SMG6", "schemaClass" : "Complex", "renderableClass" : "Complex", "position" : { "x" : 280, "y" : 890 }, "minX" : 195, "maxX" : 371, "minY" : 869, "maxY" : 906, "prop" : { "x" : 195, "y" : 875, "width" : 170, "height" : 31 }, "textPosition" : { "x" : 203, "y" : 885 }, "bgColor" : { "r" : 204, "g" : 255, "b" : 255 }, "interactorsSummary" : { "type" : "TR", "shape" : { "c" : { "x" : 365, "y" : 875 }, "r" : 6, "type" : "CIRCLE", "empty" : true, "centre" : { "x" : 365, "y" : 875 } } }, "connectors" : [ { "edgeId" : 100741, "type" : "OUTPUT", "segments" : [ ], "stoichiometry" : { "value" : 1 } } ] }, { "id" : 100742, "reactomeId" : 10858349, "displayName" : "Phosphorylated UPF1:SMG5:SMG7:SMG6:PP2A:Translated mRNP", "schemaClass" : "Complex", "renderableClass" : "Complex", "position" : { "x" : 286, "y" : 790 }, "minX" : 162, "maxX" : 417, "minY" : 762, "maxY" : 839, "prop" : { "x" : 162, "y" : 768, "width" : 249, "height" : 44 }, "textPosition" : { "x" : 174, "y" : 777 }, "bgColor" : { "r" : 204, "g" : 255, "b" : 255 }, "interactorsSummary" : { "type" : "TR", "shape" : { "c" : { "x" : 411, "y" : 768 }, "r" : 6, "type" : "CIRCLE", "empty" : true, "centre" : { "x" : 411, "y" : 768 } } }, "connectors" : [ { "edgeId" : 100741, "type" : "INPUT", "segments" : [ ], "stoichiometry" : { "value" : 1 } }, { "edgeId" : 100741, "type" : "CATALYST", "segments" : [ { "from" : { "x" : 283, "y" : 815 }, "to" : { "x" : 281, "y" : 831 } } ], "stoichiometry" : { "value" : 1 }, "endShape" : { "c" : { "x" : 281, "y" : 835 }, "r" : 4, "type" : "CIRCLE", "empty" : true, "centre" : { "x" : 281, "y" : 835 } } } ] }, { "id" : 100745, "reactomeId" : 10858304, "displayName" : "Translated mRNA Complex with Premature Termination Codon Not Preceding Exon Junction", "schemaClass" : "Complex", "renderableClass" : "Complex", "position" : { "x" : 898, "y" : 163 }, "minX" : 753, "maxX" : 1049, "minY" : 132, "maxY" : 331, "prop" : { "x" : 753, "y" : 138, "width" : 290, "height" : 50 }, "textPosition" : { "x" : 761, "y" : 139 }, "bgColor" : { "r" : 204, "g" : 255, "b" : 255 }, "interactorsSummary" : { "type" : "TR", "shape" : { "c" : { "x" : 1043, "y" : 138 }, "r" : 6, "type" : "CIRCLE", "empty" : true, "centre" : { "x" : 1043, "y" : 138 } } }, "connectors" : [ { "edgeId" : 100744, "type" : "INPUT", "segments" : [ { "from" : { "x" : 894, "y" : 191 }, "to" : { "x" : 876, "y" : 331 } } ], "stoichiometry" : { "value" : 1 } } ] }, { "id" : 100747, "reactomeId" : 10858306, "displayName" : "UPF1:eRF3 Complex on Translated mRNA", "schemaClass" : "Complex", "renderableClass" : "Complex", "position" : { "x" : 875, "y" : 652 }, "minX" : 783, "maxX" : 974, "minY" : 627, "maxY" : 672, "prop" : { "x" : 783, "y" : 633, "width" : 185, "height" : 39 }, "textPosition" : { "x" : 798, "y" : 637 }, "bgColor" : { "r" : 204, "g" : 255, "b" : 255 }, "interactorsSummary" : { "type" : "TR", "shape" : { "c" : { "x" : 968, "y" : 633 }, "r" : 6, "type" : "CIRCLE", "empty" : true, "centre" : { "x" : 968, "y" : 633 } } }, "connectors" : [ { "edgeId" : 100744, "type" : "OUTPUT", "segments" : [ ], "stoichiometry" : { "value" : 1 } } ] }, { "id" : 100746, "reactomeId" : 10858284, "displayName" : "UPF1", "schemaClass" : "EntityWithAccessionedSequence", "renderableClass" : "Protein", "position" : { "x" : 642, "y" : 115 }, "minX" : 592, "maxX" : 876, "minY" : 99, "maxY" : 331, "prop" : { "x" : 592, "y" : 105, "width" : 101, "height" : 21 }, "textPosition" : { "x" : 622, "y" : 105 }, "interactorsSummary" : { "type" : "TR", "shape" : { "c" : { "x" : 693, "y" : 105 }, "r" : 6, "type" : "CIRCLE", "empty" : true, "centre" : { "x" : 693, "y" : 105 } } }, "connectors" : [ { "edgeId" : 100744, "type" : "INPUT", "segments" : [ { "from" : { "x" : 653, "y" : 129 }, "to" : { "x" : 876, "y" : 331 } } ], "stoichiometry" : { "value" : 1 } } ] } ], "edges" : [ { "id" : 100736, "reactomeId" : 10858373, "displayName" : "SMG1 phosphorylates UPF1 (enhanced by Exon Junction Complex)", "schemaClass" : "Reaction", "renderableClass" : "Reaction", "position" : { "x" : 355, "y" : 413 }, "minX" : 323, "maxX" : 361, "minY" : 374, "maxY" : 449, "reactionType" : "transition", "segments" : [ { "from" : { "x" : 323, "y" : 374 }, "to" : { "x" : 355, "y" : 413 } }, { "from" : { "x" : 355, "y" : 413 }, "to" : { "x" : 325, "y" : 449 } } ], "reactionShape" : { "a" : { "x" : 349, "y" : 407 }, "b" : { "x" : 361, "y" : 419 }, "type" : "BOX", "empty" : true, "centre" : { "x" : 355, "y" : 413 } }, "inputs" : [ { "id" : 100737, "points" : [ { "x" : 356, "y" : 349 } ] }, { "id" : 100738, "points" : [ { "x" : 212, "y" : 374 } ], "stoichiometry" : 4 } ], "outputs" : [ { "id" : 100739, "points" : [ { "x" : 422, "y" : 498 } ] }, { "id" : 100740, "points" : [ { "x" : 221, "y" : 470 } ], "stoichiometry" : 4 } ], "catalysts" : [ { "id" : 100737, "points" : [ { "x" : 369, "y" : 349 } ] } ] }, { "id" : 100741, "reactomeId" : 10858352, "displayName" : "SMG6 hydrolyzes mRNA with premature termination codon", "schemaClass" : "BlackBoxEvent", "renderableClass" : "Reaction", "position" : { "x" : 280, "y" : 847 }, "minX" : 274, "maxX" : 286, "minY" : 815, "maxY" : 872, "reactionType" : "omitted", "segments" : [ { "from" : { "x" : 276, "y" : 815 }, "to" : { "x" : 280, "y" : 847 } }, { "from" : { "x" : 280, "y" : 847 }, "to" : { "x" : 280, "y" : 872 } } ], "endShape" : { "a" : { "x" : 276, "y" : 865 }, "b" : { "x" : 280, "y" : 872 }, "c" : { "x" : 284, "y" : 865 }, "type" : "ARROW", "centre" : { "x" : 284, "y" : 865 } }, "reactionShape" : { "a" : { "x" : 274, "y" : 841 }, "b" : { "x" : 286, "y" : 853 }, "s" : "\\\\", "type" : "BOX", "empty" : true, "centre" : { "x" : 280, "y" : 847 } }, "inputs" : [ { "id" : 100742 } ], "outputs" : [ { "id" : 100743 } ], "catalysts" : [ { "id" : 100742, "points" : [ { "x" : 283, "y" : 815 } ] } ] }, { "id" : 100744, "reactomeId" : 10858308, "displayName" : "Formation of UPF1:eRF3 complex on mRNA with a premature termination codon and no Exon Junction Complex", "schemaClass" : "Reaction", "renderableClass" : "Reaction", "position" : { "x" : 876, "y" : 450 }, "minX" : 870, "maxX" : 882, "minY" : 331, "maxY" : 630, "reactionType" : "binding", "segments" : [ { "from" : { "x" : 876, "y" : 331 }, "to" : { "x" : 876, "y" : 450 } }, { "from" : { "x" : 876, "y" : 450 }, "to" : { "x" : 875, "y" : 630 } } ], "endShape" : { "a" : { "x" : 871, "y" : 623 }, "b" : { "x" : 875, "y" : 630 }, "c" : { "x" : 879, "y" : 623 }, "type" : "ARROW", "centre" : { "x" : 879, "y" : 623 } }, "reactionShape" : { "c" : { "x" : 876, "y" : 450 }, "r" : 5, "type" : "CIRCLE", "centre" : { "x" : 876, "y" : 450 } }, "inputs" : [ { "id" : 100745, "points" : [ { "x" : 894, "y" : 191 } ] }, { "id" : 100746, "points" : [ { "x" : 653, "y" : 129 } ] } ], "outputs" : [ { "id" : 100747 } ] } ], "compartments" : [ { "id" : 100748, "reactomeId" : 70101, "displayName" : "cytosol", "schemaClass" : "Compartment", "renderableClass" : "Compartment", "position" : { "x" : 537, "y" : 590 }, "minX" : 0, "maxX" : 1074, "minY" : 0, "maxY" : 1180, "prop" : { "x" : 0, "y" : 0, "width" : 1074, "height" : 1180 }, "textPosition" : { "x" : 21, "y" : 1113 }, "insets" : { "x" : 10, "y" : 10, "width" : 1054, "height" : 1160 }, "bgColor" : { "r" : 250, "g" : 240, "b" : 240 }, "componentIds" : [ 100746, 100737, 100736, 100739, 100742, 100741, 100743, 100744, 100745, 100747, 100738, 100740, 100759, 100760 ] } ], "notes" : [ { "id" : 100759, "displayName" : "Nonsense-mediated Decay Enhanced by the Exon Junction Complex", "renderableClass" : "Note", "position" : { "x" : 290, "y" : 59 }, "minX" : 83, "maxX" : 498, "minY" : 44, "maxY" : 75, "prop" : { "x" : 83, "y" : 44, "width" : 415, "height" : 31 }, "textPosition" : { "x" : 101, "y" : 42 } }, { "id" : 100760, "displayName" : "Nonsense-mediated Decay Independent of the Exon Junction Complex", "renderableClass" : "Note", "position" : { "x" : 861, "y" : 64 }, "minX" : 645, "maxX" : 1078, "minY" : 50, "maxY" : 78, "prop" : { "x" : 645, "y" : 50, "width" : 433, "height" : 28 }, "textPosition" : { "x" : 665, "y" : 47 } } ], "links" : [ ], "shadows" : [ { "id" : 100761, "reactomeId" : 10912196, "displayName" : "Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC)", "schemaClass" : "Pathway", "renderableClass" : "Shadow", "position" : { "x" : 817, "y" : 388 }, "minX" : 582, "maxX" : 1053, "minY" : 95, "maxY" : 682, "prop" : { "x" : 627, "y" : 307, "width" : 426, "height" : 375 }, "points" : [ { "x" : 582, "y" : 95 }, { "x" : 1053, "y" : 95 }, { "x" : 1053, "y" : 682 }, { "x" : 582, "y" : 682 } ], "colour" : "#4684ee" }, { "id" : 100762, "reactomeId" : 10912200, "displayName" : "Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)", "schemaClass" : "Pathway", "renderableClass" : "Shadow", "position" : { "x" : 389, "y" : 611 }, "minX" : 152, "maxX" : 627, "minY" : 307, "maxY" : 916, "prop" : { "x" : 152, "y" : 307, "width" : 430, "height" : 375 }, "points" : [ { "x" : 152, "y" : 307 }, { "x" : 627, "y" : 307 }, { "x" : 627, "y" : 916 }, { "x" : 152, "y" : 916 } ], "colour" : "#dc3912" } ], "minX" : 0, "maxX" : 1078, "minY" : 0, "maxY" : 1180, "disease" : false }